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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
539
ChIP-seq
23
ATAC-seq
20
total RNA-seq
6
DNase-seq
5
WGBS
4
Hi-C
2
RRBS
2
STARR-seq
1
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
539
DNA binding
29
DNA accessibility
21
Transcription
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
326
transcription factor
108
control
102
histone modification
101
histone
81
recombinant protein
59
narrow histone mark
56
RNA binding protein
42
broad histone mark
17
chromatin remodeller
2
other context
2
other post-translational modification
Date released
305
November, 2017
63
December, 2017
54
August, 2017
50
May, 2020
50
November, 2018
40
May, 2022
26
August, 2021
6
October, 2019
3
February, 2021
3
July, 2019
2
June, 2019
1
December, 2018
1
March, 2020
Available data
668
bam
610
bigWig
452
fastq
429
bed narrowPeak
346
bigBed narrowPeak
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
604
Homo sapiens
Biosample type
373
cell line
207
tissue
15
in vitro differentiated cells
9
primary cell
Organ
604
liver
475
pancreas
347
epithelium
330
kidney
256
brain
189
connective tissue
185
heart
168
vasculature
162
blood vessel
115
limb
101
bone element
87
musculature of body
83
artery
78
adipose tissue
69
blood
69
bodily fluid
56
eye
38
nerve
24
spleen
22
embryo
22
vein
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
bone marrow
1
lymph node
1
pericardium
1
skin of body
1
thymus
Project
604
AMP
Genome assembly (visualization)
451
hg19
364
GRCh38
Lab
542
AMP-T2D consortium
40
Karen Mohlke, UNC
22
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
missing controlled_by
Audit category:
22
inconsistent control read length
2
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
files.file_type!
tsv
BIOSAMPLE
ASSAY
604 results
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ChIP-seq
ATAC-seq
total RNA-seq
DNase-seq
WGBS
Hi-C
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
365
1
1
2
2
1
1
tissue
liver
145
20
20
2
3
1
1
1
right lobe of liver
10
1
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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